RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780262|ref|YP_003064675.1| 30S ribosomal protein S10
[Candidatus Liberibacter asiaticus str. psy62]
(104 letters)
>gnl|CDD|179076 PRK00596, rpsJ, 30S ribosomal protein S10; Reviewed.
Length = 102
Score = 154 bits (392), Expect = 5e-39
Identities = 62/104 (59%), Positives = 79/104 (75%), Gaps = 2/104 (1%)
Query: 1 MTSRNIRICICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVD 60
M + IRI LKAFD R+LD S ++IV T K++G+Q+ GPIP P RFTV RSPHV+
Sbjct: 1 MAKQKIRIR--LKAFDHRLLDQSAKKIVETAKRTGAQVRGPIPLPTKKERFTVLRSPHVN 58
Query: 61 KKSRDQLEMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVIKL 104
K SR+Q E+R +KRL+ I+ PTP+TVDALMKLD+ AGV+V IKL
Sbjct: 59 KDSREQFEIRTHKRLIDIVDPTPKTVDALMKLDLPAGVDVEIKL 102
>gnl|CDD|130121 TIGR01049, rpsJ_bact, ribosomal protein S10, bacterial/organelle.
This model describes bacterial 30S ribosomal protein
S10. In species that have a transcription
antitermination complex, or N utilization substance,
with NusA, NusB, NusG, and NusE, this ribosomal protein
is responsible for NusE activity. Included in the family
are one member each from Saccharomyces cerevisiae and
Schizosaccharomyces pombe. These proteins lack an
N-terminal mitochondrial transit peptide but contain
additional sequence C-terminal to the ribosomal S10
protein region.
Length = 99
Score = 125 bits (317), Expect = 2e-30
Identities = 55/98 (56%), Positives = 76/98 (77%)
Query: 7 RICICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVDKKSRDQ 66
+I I LK++D R+LD S ++IV T K++G+Q+ GPIP P R+TV RSPHV+K SR+Q
Sbjct: 2 KIRIKLKSYDHRLLDQSTKKIVETAKRTGAQVKGPIPLPTKKERYTVLRSPHVNKDSREQ 61
Query: 67 LEMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVIKL 104
E+R +KRL+ II P P+T+DALMKLD+ AGV++ IKL
Sbjct: 62 FEIRTHKRLIDIIDPNPKTIDALMKLDLPAGVDIEIKL 99
>gnl|CDD|183392 PRK12271, rps10p, 30S ribosomal protein S10P; Reviewed.
Length = 102
Score = 48.4 bits (116), Expect = 4e-07
Identities = 28/96 (29%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 10 ICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVD-KKSRDQLE 68
I L + + LD +I +K+G + GPIP P +SP + + D E
Sbjct: 6 IRLSSTNPEDLDEVCDQIKEIAEKTGVDMSGPIPLPTKRLVVPTRKSPDGEGTATWDHWE 65
Query: 69 MRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVIKL 104
MRI+KRL+ I + + LM++ + V + I+L
Sbjct: 66 MRIHKRLI-DIDADERALRQLMRIRVPEDVQIEIEL 100
>gnl|CDD|130118 TIGR01046, S10_Arc_S20_Euk, ribosomal protein
S10(archaeal)/S20(eukaryotic). its equivalents in
eukaryotes.
Length = 99
Score = 47.8 bits (114), Expect = 5e-07
Identities = 28/99 (28%), Positives = 51/99 (51%), Gaps = 2/99 (2%)
Query: 7 RICICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVD-KKSRD 65
+ I L + + R L+ +I +K+G ++ GP+P P R +SP + K+ D
Sbjct: 2 KARIKLTSTNVRSLEKVCAQIKRIAEKTGVRMSGPVPLPTKRLRVPTRKSPDGEGSKTWD 61
Query: 66 QLEMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNVVIKL 104
+ EMRI+KRL+ I + + +M++ + V + I L
Sbjct: 62 RWEMRIHKRLIDIEADE-RALRQIMRISVPEDVEIEITL 99
>gnl|CDD|173336 PTZ00039, PTZ00039, 40S ribosomal protein S20; Provisional.
Length = 115
Score = 38.3 bits (89), Expect = 5e-04
Identities = 25/95 (26%), Positives = 48/95 (50%), Gaps = 2/95 (2%)
Query: 7 RICICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVD-KKSRD 65
+I I L + + + ++ +I+ K+ ++ GP+ P R T +SP + + D
Sbjct: 18 KIRITLTSKNLKSIEKVCADIITGAKEKNLKVTGPVRMPVKTLRITTRKSPCGEGTNTWD 77
Query: 66 QLEMRIYKRLLYIIKPTPQTVDALMKLDIAAGVNV 100
+ EMRIYKR++ + + V + ++I GV V
Sbjct: 78 RFEMRIYKRVIDLYS-SSDVVTQITSINIDPGVEV 111
>gnl|CDD|152031 pfam11595, DUF3245, Protein of unknown function (DUF3245). This is
a family of proteins conserved in fungi. The function is
not known, and there is no S. cerevisiae member.
Length = 147
Score = 28.0 bits (62), Expect = 0.60
Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 43 PFPRSIRRFTVNRSPHV-DKKSRDQLEMRIYKRLLYIIKPTPQTVDALM 90
P P + NR+ + K R QL + YK+++ V+A
Sbjct: 55 PLPTQAADGSWNRTELDSNDKLRRQLLGKNYKKVMSEKSKANAPVNAGK 103
>gnl|CDD|183907 PRK13235, nifH, nitrogenase reductase; Reviewed.
Length = 274
Score = 27.5 bits (61), Expect = 0.82
Identities = 24/96 (25%), Positives = 43/96 (44%), Gaps = 12/96 (12%)
Query: 10 ICLKAFDSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNR------SP-HVDKK 62
IC +SR +D+ I +K G+Q++ +P ++R +NR P H
Sbjct: 182 IC----NSRKVDNEREMIEELARKIGTQMIHFVPRDNFVQRAEINRKTVIEYDPTHPQAD 237
Query: 63 SRDQLEMRIYKRLLYIIKPTPQTVDALMKLDIAAGV 98
L +I + +++I P P ++ L L I G+
Sbjct: 238 EYRALARKIDENEMFVI-PKPLEIEELESLLIEFGI 272
>gnl|CDD|179750 PRK04148, PRK04148, hypothetical protein; Provisional.
Length = 134
Score = 26.9 bits (60), Expect = 1.0
Identities = 11/35 (31%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 71 IYK--RLLYIIKPTPQTVDALMKLDIAAGVNVVIK 103
IYK +L+Y I+P +++L V ++IK
Sbjct: 74 IYKNAKLIYSIRPPRDLQPFILELAKKINVPLIIK 108
>gnl|CDD|163393 TIGR03680, eif2g_arch, translation initiation factor 2 subunit
gamma. eIF-2 functions in the early steps of protein
synthesis by forming a ternary complex with GTP and
initiator tRNA.
Length = 406
Score = 26.6 bits (59), Expect = 1.5
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 81 PTPQTVDALMKLDIAAGVNVVI 102
P PQT + LM L+I N+VI
Sbjct: 118 PQPQTKEHLMALEIIGIKNIVI 139
>gnl|CDD|179703 PRK04000, PRK04000, translation initiation factor IF-2 subunit
gamma; Validated.
Length = 411
Score = 26.4 bits (59), Expect = 1.6
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 81 PTPQTVDALMKLDIAAGVNVVI 102
P PQT + LM LDI N+VI
Sbjct: 123 PQPQTKEHLMALDIIGIKNIVI 144
>gnl|CDD|106194 PRK13232, nifH, nitrogenase reductase; Reviewed.
Length = 273
Score = 26.5 bits (58), Expect = 1.6
Identities = 20/90 (22%), Positives = 41/90 (45%), Gaps = 8/90 (8%)
Query: 16 DSRILDSSMREIVLTTKKSGSQIVGPIPFPRSIRRFTVNRSPHVDKKSRDQLEMRIYKRL 75
+SR +D + KK GSQ++ +P ++R +NR +D + + + Y L
Sbjct: 182 NSRNVDGERELLEAFAKKLGSQLIHFVPRDNIVQRAEINRKTVID-FDPESNQAKEYLTL 240
Query: 76 LY-------IIKPTPQTVDALMKLDIAAGV 98
+ ++ PTP ++ L + + G+
Sbjct: 241 AHNVQNNDKLVVPTPLPMEELEAMMVEFGI 270
>gnl|CDD|183851 PRK13028, PRK13028, tryptophan synthase subunit beta; Provisional.
Length = 402
Score = 26.4 bits (59), Expect = 1.6
Identities = 16/37 (43%), Positives = 24/37 (64%), Gaps = 8/37 (21%)
Query: 35 GSQIVGPIPFPRSIRRF-TVNRSPHVDKKSRDQ-LEM 69
GS +VGP PFP +R F +V + +++R+Q LEM
Sbjct: 196 GS-VVGPHPFPMMVRDFQSV-----IGEEAREQFLEM 226
>gnl|CDD|177753 PLN00149, PLN00149, potassium transporter; Provisional.
Length = 779
Score = 26.4 bits (58), Expect = 1.9
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 41 PIPFPRSIRRFTVNRSPHVDKKSRDQLE 68
P+ P+ RF V SP +D+ +R++L+
Sbjct: 685 PVSRPKKRVRFVVPESPKIDRGAREELQ 712
>gnl|CDD|132291 TIGR03247, glucar-dehydr, glucarate dehydratase. Glucarate
dehydratase converts D-glucarate (and L-idarate, a
stereoisomer) to 5-dehydro-4-deoxyglucarate which is
subsequently acted on by GarL, tartronate semialdehyde
reductase and glycerate kinase (, GenProp0716). The E.
coli enzyme has been well-characterized.
Length = 441
Score = 25.2 bits (55), Expect = 4.1
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 7/42 (16%)
Query: 16 DSRILDSS-------MREIVLTTKKSGSQIVGPIPFPRSIRR 50
DS +L+ S R IV+ T SG+ VG +P IR
Sbjct: 18 DSMLLNLSGAHAPFFTRNIVILTDSSGNTGVGEVPGGEKIRA 59
>gnl|CDD|178822 PRK00048, PRK00048, dihydrodipicolinate reductase; Provisional.
Length = 257
Score = 24.7 bits (55), Expect = 5.2
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 82 TPQTVDALMKLDIAAGVNVVI 102
TP+ ++ + G +VI
Sbjct: 69 TPEATLENLEFALEHGKPLVI 89
>gnl|CDD|184583 PRK14237, PRK14237, phosphate transporter ATP-binding protein;
Provisional.
Length = 267
Score = 24.3 bits (53), Expect = 6.6
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 41 PIPFPRSIRR---FTVNRSPHVDKKSRDQL 67
P PF +SI F + R+ DKK D++
Sbjct: 110 PNPFAKSIYENITFALERAGVKDKKVLDEI 139
>gnl|CDD|149066 pfam07796, DUF1638, Protein of unknown function (DUF1638). This
family contains sequences covering an approximately 270
amino acid stretch of a group of hypothetical proteins.
These proteins are expressed by archaeal species of the
Methanosarcina genus.
Length = 166
Score = 24.5 bits (54), Expect = 6.8
Identities = 11/52 (21%), Positives = 18/52 (34%), Gaps = 1/52 (1%)
Query: 46 RSIRRFTVNRSPHVDKKSRDQLEMRIYKRLLYIIKPTPQTVDALMKL-DIAA 96
R F + R + Y++++YI QT D K + A
Sbjct: 92 RQWDAFVIKRLGLDRHPELRDMYFGHYRKVVYIDTGLYQTDDFEAKAREFAD 143
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.326 0.139 0.393
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,644,138
Number of extensions: 90561
Number of successful extensions: 242
Number of sequences better than 10.0: 1
Number of HSP's gapped: 239
Number of HSP's successfully gapped: 27
Length of query: 104
Length of database: 5,994,473
Length adjustment: 71
Effective length of query: 33
Effective length of database: 4,460,305
Effective search space: 147190065
Effective search space used: 147190065
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.1 bits)